Variant report

Variant	rs554937497
Chromosome Location	chr3:56716269-56716270
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:56705021..56708606-chr3:56714722..56718211,5	MCF-7	breast:
2	chr3:56714433..56716910-chr3:57020526..57023323,2	MCF-7	breast:
3	chr3:56715125..56717534-chr4:38104477..38107344,2	MCF-7	breast:
4	chr3:56589231..56591997-chr3:56715959..56718849,3	K562	blood:
5	chr12:50134951..50135493-chr3:56716063..56717030,2	Hela-S3	cervix:
6	chr3:56666598..56668908-chr3:56715764..56717337,2	MCF-7	breast:
7	chr3:56589586..56592975-chr3:56714350..56719200,6	K562	blood:
8	chr3:56715514..56718317-chr3:56833414..56836251,4	MCF-7	breast:
9	chr10:126106969..126107773-chr3:56716259..56717211,2	Hela-S3	cervix:

No data

Variant related genes	Relation type
ENSG00000163947	Chromatin interaction
ENSG00000163946	Chromatin interaction
ENSG00000065882	Chromatin interaction
ENSG00000180376	Chromatin interaction
ENSG00000065154	Chromatin interaction
ENSG00000139644	Chromatin interaction

Extended variants
information (count: 1 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3327056	chr3:56715937-56718485	Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56713600-56717600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr3:56713800-56717400	Active TSS	iPS-20b Cell Line	embryonic stem cell
3	chr3:56713800-56717400	Active TSS	GM12878-XiMat	blood
4	chr3:56713800-56717400	Active TSS	K562	blood
5	chr3:56714600-56717400	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr3:56714600-56717400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr3:56714800-56716400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
8	chr3:56714800-56716400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
9	chr3:56714800-56717400	Active TSS	HMEC	breast
10	chr3:56714800-56717600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:56715000-56716400	Flanking Active TSS	NHEK	skin
12	chr3:56715000-56717400	Active TSS	HUES6 Cell Line	embryonic stem cell
13	chr3:56715200-56716400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:56715200-56716400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr3:56715200-56716400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
16	chr3:56715200-56716400	Flanking Active TSS	Dnd41	blood
17	chr3:56715200-56716400	Flanking Active TSS	HUVEC	blood vessel
18	chr3:56715200-56716400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
19	chr3:56715200-56716400	Flanking Active TSS	Osteobl	bone
20	chr3:56715200-56717400	Active TSS	H1 Cell Line	embryonic stem cell
21	chr3:56715200-56717600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr3:56715200-56717800	Active TSS	Thymus	Thymus
23	chr3:56715400-56716400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr3:56715400-56716400	Flanking Active TSS	Primary hematopoietic stem cells	blood
25	chr3:56715400-56716400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
26	chr3:56715400-56716400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
27	chr3:56715400-56716400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
28	chr3:56715400-56716400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr3:56715400-56716400	Flanking Active TSS	Liver	Liver
30	chr3:56715400-56716600	Flanking Active TSS	Primary B cells from cord blood	blood
31	chr3:56715400-56717400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
32	chr3:56715400-56717400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr3:56715400-56717400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr3:56715400-56717400	Active TSS	A549	lung
35	chr3:56715400-56717600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr3:56715400-56717600	Active TSS	Brain Inferior Temporal Lobe	brain
37	chr3:56715400-56717600	Active TSS	NHLF	lung
38	chr3:56715600-56716400	Flanking Active TSS	Primary T cells from cord blood	blood
39	chr3:56715600-56718000	Active TSS	Brain Angular Gyrus	brain
40	chr3:56715600-56718000	Active TSS	HSMMtube	muscle
41	chr3:56715800-56716400	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr3:56715800-56716400	Flanking Active TSS	Brain Substantia Nigra	brain
43	chr3:56715800-56716400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
44	chr3:56715800-56716800	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr3:56715800-56717200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
46	chr3:56715800-56717400	Active TSS	HUES48 Cell Line	embryonic stem cell
47	chr3:56715800-56717400	Active TSS	iPS-15b Cell Line	embryonic stem cell
48	chr3:56715800-56717400	Active TSS	iPS-18 Cell Line	embryonic stem cell
49	chr3:56715800-56717400	Active TSS	Primary T cells fromperipheralblood	blood
50	chr3:56715800-56717400	Active TSS	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links